I am a fresh bird in MEGAN. I have installed MEGAN6_Community on Centos, But I have no idea how to use it, for example to do the taxonomy assignment. Could anybody give me some help?
Please take a look at the MEGAN paper https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1004957
and also these protocols https://currentprotocols.onlinelibrary.wiley.com/doi/10.1002/cpz1.59 .